Get GC content, gene Ids, gene symbols, gene biotypes, gene lengths and other metadata from Ensembl BioMart. Object returned contains gene Ids as rownames.
1 | get_biomart(count_df, gene_id, synid, version, host, filters, organism)
|
count_df |
A counts data frame with sample identifiers as rownames. |
gene_id |
Column name of gene Ids |
synid |
A character vector with a Synapse Id. |
version |
Optional. A numeric vector with the Synapse file version number. |
host |
An optional character vector specifying the release version.
This specification is highly recommended for a reproducible workflow.
(see |
filters |
A character vector listing biomaRt query filters.
(For a list of filters see |
organism |
A character vector of the organism name. This argument takes partial strings. For example,"hsa" will match "hsapiens_gene_ensembl". |
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